SMTL ID : 7z14.1

Cryo-EM structure of Torpedo nicotinic acetylcholine receptor in complex with a short-chain neurotoxin.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-2-mer

Ligands

2 x NAG- NAG- BMA- MAN- MAN- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.1: 12 residues within 4Å: Chain D: N.141, W.184, K.185, H.186, W.187, Y.189, T.202, H.204, I.206 Chain F: Q.7, E.36, R.37 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.186 NAG-NAG-BMA-MAN-MAN-MAN-MAN-MAN-MAN.4: 12 residues within 4Å: Chain A: N.141, T.143, W.184, K.185, H.186, W.187, Y.189, T.202, H.204, I.206 Chain G: Q.7, E.36 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.186

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 8 residues within 4Å: Chain C: W.141, N.143, K.198, N.200, Y.218, P.482, F.486, E.487 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.198, C:K.198 NAG-NAG.3: 7 residues within 4Å: Chain B: W.139, N.141, R.194, Y.210, P.464, P.467, F.468 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.194

1 x NAG- NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-NAG-MAN-MAN.5: 10 residues within 4Å: Chain E: W.139, N.141, K.192, N.194, W.197, F.212, P.479, F.480, P.481, G.482 No protein-ligand interaction detected (PLIP)

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.6: 3 residues within 4Å: Chain B: Q.111, K.165 Chain C: N.208 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:K.165, C:N.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nys, M. et al., The molecular mechanism of snake short-chain alpha-neurotoxin binding to muscle-type nicotinic acetylcholine receptors. Nat Commun (2022)

Release Date

2022-08-17

Peptides

Acetylcholine receptor subunit alpha: AD
Acetylcholine receptor subunit beta: B
Acetylcholine receptor subunit delta: C
Acetylcholine receptor subunit gamma: E
Consensus short-chain short-chain alpha-neurotoxin ScNtx: FG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

C
C

E
E

F
F

G
G

Membrane

We predict this structure to be a membrane protein.
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Acetylcholine receptor subunit alpha

Acetylcholine receptor subunit beta

Acetylcholine receptor subunit delta

Acetylcholine receptor subunit gamma

Consensus short-chain short-chain alpha-neurotoxin ScNtx

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